Galaxy: Add -f to ln calls at the end of _configure_galaxy_repository so the procedure can be recalled on existing repository.
Deployer: Add some quick documentation to cloudman.md about how to customize tools, galaxy, cloudman (presumably if someone is building a CloudMan image they will want to do one of these).
Deployer: Update sample galaxy_home to /mnt/galaxy/galaxy-app. It seems to be supported and it is a little more generic. Also change example galaxy-p example URL to not use the cloud modified version, it does not work with this setup.